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(-) Description

Title :  THE CRYSTAL STRUCTURE OF THE HISTIDINOL-PHOSPHATE AMINOTRANSFERASE FROM CLOSTRIDIUM ACETOBUTYLICUM
 
Authors :  R. Zhang, L. Bigelow, S. Moy, A. Joachimiak, Midwest Center For Structural Genomics (Mcsg)
Date :  12 Jan 09  (Deposition) - 17 Feb 09  (Release) - 17 Feb 09  (Revision)
Method :  X-RAY DIFFRACTION
Resolution :  2.00
Chains :  Asym. Unit :  A,B,D,E
Biol. Unit 1:  A,B  (1x)
Biol. Unit 2:  D,E  (1x)
Keywords :  Histidinol-Phosphate Aminotransferase, Structural Genomics, Psi, Mcsg, Protein Structure Initiative, Midwest Center For Structural Genomics, Aminotransferase, Transferase (Keyword Search: [Gene Ontology, PubMed, Web (Google)] )
 
Reference :  R. Zhang, L. Bigelow, S. Moy, A. Joachimiak
The Crystal Structure Of The Histidinol-Phosphate Aminotransferase From Clostridium Acetobutylicum
To Be Published
PubMed: search
(for further references see the PDB file header)

(-) Compounds

Molecule 1 - HISTIDINOL-PHOSPHATE AMINOTRANSFERASE
    Chains: A, B, D, E
    Engineered: YES
    Expression System: ESCHERICHIA COLI
    Expression System Plasmid: PMCSG7
    Expression System Strain: BL21
    Expression System Taxid: 562
    Expression System Vector Type: PLASMID
    Organism Scientific: CLOSTRIDIUM ACETOBUTYLICUM
    Organism Taxid: 1488
    Strain: ATCC 824

 Structural Features

(-) Chains, Units

  1234
Asymmetric Unit : ABDE
Biological Unit 1 (1x): AB  
Biological Unit 2 (1x):   DE

Summary Information (see also Sequences/Alignments below)

(-) Ligands, Modified Residues, Ions  (1, 10)

Asymmetric Unit (1, 10)
No.NameCountTypeFull Name
1PO410Ligand/IonPHOSPHATE ION
Biological Unit 1 (1, 5)
No.NameCountTypeFull Name
1PO45Ligand/IonPHOSPHATE ION
Biological Unit 2 (1, 5)
No.NameCountTypeFull Name
1PO45Ligand/IonPHOSPHATE ION

(-) Sites  (10, 10)

Asymmetric Unit (10, 10)
No.NameEvidenceResiduesDescription
01AC1SOFTWAREGLY A:86 , ALA A:87 , SER A:88 , THR A:214 , ARG A:223 , TYR B:58BINDING SITE FOR RESIDUE PO4 A 362
02AC2SOFTWARETYR A:108 , ASN A:155 , ARG A:324 , ARG A:338 , HOH A:371BINDING SITE FOR RESIDUE PO4 A 363
03AC3SOFTWARETYR A:73 , SER A:196 , VAL A:198 , ARG A:211BINDING SITE FOR RESIDUE PO4 A 364
04AC4SOFTWARETYR A:58 , ALA B:87 , SER B:88 , TYR B:108 , THR B:214 , LYS B:215 , ARG B:223 , HOH B:459BINDING SITE FOR RESIDUE PO4 B 362
05AC5SOFTWARESER B:32 , ASN B:155 , ARG B:324 , ARG B:338 , HOH B:366 , HOH B:381BINDING SITE FOR RESIDUE PO4 B 363
06AC6SOFTWAREGLY D:86 , ALA D:87 , SER D:88 , THR D:214 , ARG D:223 , TYR E:58BINDING SITE FOR RESIDUE PO4 D 362
07AC7SOFTWARETYR D:108 , ASN D:155 , ARG D:338 , HOH D:386 , HOH D:419 , HOH D:484BINDING SITE FOR RESIDUE PO4 D 363
08AC8SOFTWARETYR D:73 , GLU D:188 , ARG D:211 , HOH D:443 , HOH D:446BINDING SITE FOR RESIDUE PO4 D 364
09AC9SOFTWARETYR D:58 , ALA E:87 , SER E:88 , ALA E:212 , THR E:214 , LYS E:215 , ARG E:223 , HOH E:407BINDING SITE FOR RESIDUE PO4 E 362
10BC1SOFTWAREASN E:155 , ARG E:324 , ARG E:338 , HOH E:368BINDING SITE FOR RESIDUE PO4 E 363

(-) SS Bonds  (0, 0)

(no "SS Bond" information available for 3FTB)

(-) Cis Peptide Bonds  (12, 12)

Asymmetric Unit
No.Residues
1Val A:105 -Pro A:106
2Asn A:152 -Pro A:153
3Asn A:155 -Pro A:156
4Val B:105 -Pro B:106
5Asn B:152 -Pro B:153
6Asn B:155 -Pro B:156
7Val D:105 -Pro D:106
8Asn D:152 -Pro D:153
9Asn D:155 -Pro D:156
10Val E:105 -Pro E:106
11Asn E:152 -Pro E:153
12Asn E:155 -Pro E:156

 Sequence-Structure Mapping

(-) SAPs(SNPs)/Variants  (0, 0)

(no "SAP(SNP)/Variant" information available for 3FTB)

(-) PROSITE Motifs  (0, 0)

(no "PROSITE Motif" information available for 3FTB)

(-) Exons   (0, 0)

(no "Exon" information available for 3FTB)

(-) Sequences/Alignments

Asymmetric Unit
   Reformat: Number of residues per line =  ('0' or empty: single-line sequence representation)
  Number of residues per labelling interval =   
  UniProt sequence: complete  aligned part    
   Show mapping: SCOP domains CATH domains Pfam domains Secondary structure (by author)
SAPs(SNPs) PROSITE motifs Exons
(details for a mapped element are shown in a popup box when the mouse pointer rests over it) 
Chain A from PDB  Type:PROTEIN  Length:334
 aligned with Q97JB7_CLOAB | Q97JB7 from UniProtKB/TrEMBL  Length:361

    Alignment length:334
                                    37        47        57        67        77        87        97       107       117       127       137       147       157       167       177       187       197       207       217       227       237       247       257       267       277       287       297       307       317       327       337       347       357    
         Q97JB7_CLOAB    28 LLDYSSNINPLGIPKSFLNNIDEGIKNLGVYPDVNYRRLNKSIENYLKLKDIGIVLGNGASEIIELSISLFEKILIIVPSYAEYEINAKKHGVSVVFSYLDENMCIDYEDIISKIDDVDSVIIGNPNNPNGGLINKEKFIHVLKLAEEKKKTIIIDEAFIEFTGDPSSSFVGEIKNYSCLFIIRAMTKFFAMPGIRFGYGITNNKEIAAKIKAKQNPWNINCFAEMAAINCLKDTNYIEESLLWIKKERKRFIEELNKIGFIKRVFSPHANFVLCRLENISGEKLYDSLLKEDIVIRRCCNFIGLDDSFVRFAIKDEKKNTKFLRALKGVENNL 361
               SCOP domains d3ftba_ A: automated matches                                                                                                                                                                                                                                                                                                                   SCOP domains
               CATH domains 3ftbA01     3ftbA02 A:40-261 Type I PLP-dependent aspartate aminotransferase-like (Major domain)                                                                                                                                          3ftbA01 A:28-39,A:262-361 Aspartate Aminotransferase, domain 1                                       CATH domains
               Pfam domains ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Pfam domains
         Sec.struct. author .ee..........hhhhhhhhhhhhhhhhh.....hhhhhhhhhhhhh....eeeee..hhhhhhhhhh...eeeeee...hhhhhhhhhh..eeeeee.......hhhhhhhhh....eeeee..........hhhhhhhhhhhhhhhh.eeeee..hhhhh......hhhhh.....eeeeee......hhhhh.eeeee.hhhhhhhhhh.......hhhhhhhhhhh..hhhhhhhhhhhhhhhhhhhhhhhhhh..eeeee.....eeeeee...hhhhhhhhhhh..ee.ee..........eeeee..hhhhhhhhhhhhhhhhhh. Sec.struct. author
                 SAPs(SNPs) ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- PROSITE
                 Transcript ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Transcript
                 3ftb A  28 LLDYSSNINPLGIPKSFLNNIDEGIKNLGVYPDVNYRRLNKSIENYLKLKDIGIVLGNGASEIIELSISLFEKILIIVPSYAEYEINAKKHGVSVVFSYLDENMCIDYEDIISKIDDVDSVIIGNPNNPNGGLINKEKFIHVLKLAEEKKKTIIIDEAFIEFTGDPSSSFVGEIKNYSCLFIIRAMTKFFAMPGIRFGYGITNNKEIAAKIKAKQNPWNINCFAEMAAINCLKDTNYIEESLLWIKKERKRFIEELNKIGFIKRVFSPHANFVLCRLENISGEKLYDSLLKEDIVIRRCCNFIGLDDSFVRFAIKDEKKNTKFLRALKGVENNL 361
                                    37        47        57        67        77        87        97       107       117       127       137       147       157       167       177       187       197       207       217       227       237       247       257       267       277       287       297       307       317       327       337       347       357    


Chain B from PDB  Type:PROTEIN  Length:334
 aligned with Q97JB7_CLOAB | Q97JB7 from UniProtKB/TrEMBL  Length:361

    Alignment length:334
                                    37        47        57        67        77        87        97       107       117       127       137       147       157       167       177       187       197       207       217       227       237       247       257       267       277       287       297       307       317       327       337       347       357    
         Q97JB7_CLOAB    28 LLDYSSNINPLGIPKSFLNNIDEGIKNLGVYPDVNYRRLNKSIENYLKLKDIGIVLGNGASEIIELSISLFEKILIIVPSYAEYEINAKKHGVSVVFSYLDENMCIDYEDIISKIDDVDSVIIGNPNNPNGGLINKEKFIHVLKLAEEKKKTIIIDEAFIEFTGDPSSSFVGEIKNYSCLFIIRAMTKFFAMPGIRFGYGITNNKEIAAKIKAKQNPWNINCFAEMAAINCLKDTNYIEESLLWIKKERKRFIEELNKIGFIKRVFSPHANFVLCRLENISGEKLYDSLLKEDIVIRRCCNFIGLDDSFVRFAIKDEKKNTKFLRALKGVENNL 361
               SCOP domains d3ftbb_ B: automated matches                                                                                                                                                                                                                                                                                                                   SCOP domains
               CATH domains 3ftbB01     3ftbB02 B:40-261 Type I PLP-dependent aspartate aminotransferase-like (Major domain)                                                                                                                                          3ftbB01 B:28-39,B:262-361 Aspartate Aminotransferase, domain 1                                       CATH domains
               Pfam domains ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Pfam domains
         Sec.struct. author .eee.........hhhhhhhhhhhhhhhhh.....hhhhhhhhhhhhh....eeeee.hhhhhhhhhhhh..eeeeee...hhhhhhhhhh..eeeeee.......hhhhhhhhhhhh.eeeee..........hhhhhhhhhhhhhhh..eeeee..hhhhh.hhhhhhhhhh.....eeeeee......hhhhh.eeeee.hhhhhhhhhh.......hhhhhhhhhhh..hhhhhhhhhhhhhhhhhhhhhhhhh...eeee......eeeeee...hhhhhhhhhhh..eeeee..........eeeee..hhhhhhhhhhhhhhhhhhh Sec.struct. author
                 SAPs(SNPs) ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- PROSITE
                 Transcript ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Transcript
                 3ftb B  28 LLDYSSNINPLGIPKSFLNNIDEGIKNLGVYPDVNYRRLNKSIENYLKLKDIGIVLGNGASEIIELSISLFEKILIIVPSYAEYEINAKKHGVSVVFSYLDENMCIDYEDIISKIDDVDSVIIGNPNNPNGGLINKEKFIHVLKLAEEKKKTIIIDEAFIEFTGDPSSSFVGEIKNYSCLFIIRAMTKFFAMPGIRFGYGITNNKEIAAKIKAKQNPWNINCFAEMAAINCLKDTNYIEESLLWIKKERKRFIEELNKIGFIKRVFSPHANFVLCRLENISGEKLYDSLLKEDIVIRRCCNFIGLDDSFVRFAIKDEKKNTKFLRALKGVENNL 361
                                    37        47        57        67        77        87        97       107       117       127       137       147       157       167       177       187       197       207       217       227       237       247       257       267       277       287       297       307       317       327       337       347       357    


Chain D from PDB  Type:PROTEIN  Length:333
 aligned with Q97JB7_CLOAB | Q97JB7 from UniProtKB/TrEMBL  Length:361

    Alignment length:334
                                    37        47        57        67        77        87        97       107       117       127       137       147       157       167       177       187       197       207       217       227       237       247       257       267       277       287       297       307       317       327       337       347       357    
         Q97JB7_CLOAB    28 LLDYSSNINPLGIPKSFLNNIDEGIKNLGVYPDVNYRRLNKSIENYLKLKDIGIVLGNGASEIIELSISLFEKILIIVPSYAEYEINAKKHGVSVVFSYLDENMCIDYEDIISKIDDVDSVIIGNPNNPNGGLINKEKFIHVLKLAEEKKKTIIIDEAFIEFTGDPSSSFVGEIKNYSCLFIIRAMTKFFAMPGIRFGYGITNNKEIAAKIKAKQNPWNINCFAEMAAINCLKDTNYIEESLLWIKKERKRFIEELNKIGFIKRVFSPHANFVLCRLENISGEKLYDSLLKEDIVIRRCCNFIGLDDSFVRFAIKDEKKNTKFLRALKGVENNL 361
               SCOP domains d3ftbd_ D: automated matches                                                                                                                                                                                                                                                                                                                   SCOP domains
               CATH domains 3ftbD01     3ftbD02 D:40-261 Type I PLP-dependent aspartate aminotransferase-like (Major domain)                                                                                                                                          3ftbD01 D:28-39,D:262-361 Aspartate Aminotransferase, domain 1                                       CATH domains
               Pfam domains ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Pfam domains
         Sec.struct. author .ee..........hhhhhhhhhhhhhh........hhhhhhhhhhhhh....eeeee.hhhhhhhhhhh...eeeeee...hhhhhhhhh...eeeeee.......hhhhhhh......eeeee..........hhhhhhhhhhhhhhh-.eeeee..hhhhh.....hhhhhh.....eeeeee......hhhhh.eeeee.hhhhhhhhhh.......hhhhhhhhhhhh.hhhhhhhhhhhhhhhhhhhhhhhhh...eeeee.....eeeeee...hhhhhhhhhhhh.ee.ee..........eeeee..hhhhhhhhhhhhhhhhhh. Sec.struct. author
                 SAPs(SNPs) ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- PROSITE
                 Transcript ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Transcript
                 3ftb D  28 LLDYSSNINPLGIPKSFLNNIDEGIKNLGVYPDVNYRRLNKSIENYLKLKDIGIVLGNGASEIIELSISLFEKILIIVPSYAEYEINAKKHGVSVVFSYLDENMCIDYEDIISKIDDVDSVIIGNPNNPNGGLINKEKFIHVLKLAEEK-KTIIIDEAFIEFTGDPSSSFVGEIKNYSCLFIIRAMTKFFAMPGIRFGYGITNNKEIAAKIKAKQNPWNINCFAEMAAINCLKDTNYIEESLLWIKKERKRFIEELNKIGFIKRVFSPHANFVLCRLENISGEKLYDSLLKEDIVIRRCCNFIGLDDSFVRFAIKDEKKNTKFLRALKGVENNL 361
                                    37        47        57        67        77        87        97       107       117       127       137       147       157       167        |-|      187       197       207       217       227       237       247       257       267       277       287       297       307       317       327       337       347       357    
                                                                                                                                                                              176 |                                                                                                                                                                                       
                                                                                                                                                                                178                                                                                                                                                                                       


Chain E from PDB  Type:PROTEIN  Length:334
 aligned with Q97JB7_CLOAB | Q97JB7 from UniProtKB/TrEMBL  Length:361

    Alignment length:334
                                    37        47        57        67        77        87        97       107       117       127       137       147       157       167       177       187       197       207       217       227       237       247       257       267       277       287       297       307       317       327       337       347       357    
         Q97JB7_CLOAB    28 LLDYSSNINPLGIPKSFLNNIDEGIKNLGVYPDVNYRRLNKSIENYLKLKDIGIVLGNGASEIIELSISLFEKILIIVPSYAEYEINAKKHGVSVVFSYLDENMCIDYEDIISKIDDVDSVIIGNPNNPNGGLINKEKFIHVLKLAEEKKKTIIIDEAFIEFTGDPSSSFVGEIKNYSCLFIIRAMTKFFAMPGIRFGYGITNNKEIAAKIKAKQNPWNINCFAEMAAINCLKDTNYIEESLLWIKKERKRFIEELNKIGFIKRVFSPHANFVLCRLENISGEKLYDSLLKEDIVIRRCCNFIGLDDSFVRFAIKDEKKNTKFLRALKGVENNL 361
               SCOP domains d3ftbe_ E: automated matches                                                                                                                                                                                                                                                                                                                   SCOP domains
               CATH domains 3ftbE01     3ftbE02 E:40-261 Type I PLP-dependent aspartate aminotransferase-like (Major domain)                                                                                                                                          3ftbE01 E:28-39,E:262-361 Aspartate Aminotransferase, domain 1                                       CATH domains
               Pfam domains ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Pfam domains
         Sec.struct. author .eee.........hhhhhhhhhhhhhhhhh.....hhhhhhhhhhhhh....eeeeeehhhhhhhhhhhh..eeeeee...hhhhhhhhhh..eeeeee.......hhhhhhhhhhhh.eeeee..........hhhhhhhhhhhhhhhh.eeeee........hhhhhhhhhh.....eeeeeehhhhhhhhhh.eeeeee.hhhhhhhhhhh......hhhhhhhhhhhh.hhhhhhhhhhhhhhhhhhhhhhhh....eeee......eeeeee...hhhhhhhhhhhh.eeeee..........eeeee..hhhhhhhhhhhhhhhhhh. Sec.struct. author
                 SAPs(SNPs) ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- PROSITE
                 Transcript ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Transcript
                 3ftb E  28 LLDYSSNINPLGIPKSFLNNIDEGIKNLGVYPDVNYRRLNKSIENYLKLKDIGIVLGNGASEIIELSISLFEKILIIVPSYAEYEINAKKHGVSVVFSYLDENMCIDYEDIISKIDDVDSVIIGNPNNPNGGLINKEKFIHVLKLAEEKKKTIIIDEAFIEFTGDPSSSFVGEIKNYSCLFIIRAMTKFFAMPGIRFGYGITNNKEIAAKIKAKQNPWNINCFAEMAAINCLKDTNYIEESLLWIKKERKRFIEELNKIGFIKRVFSPHANFVLCRLENISGEKLYDSLLKEDIVIRRCCNFIGLDDSFVRFAIKDEKKNTKFLRALKGVENNL 361
                                    37        47        57        67        77        87        97       107       117       127       137       147       157       167       177       187       197       207       217       227       237       247       257       267       277       287       297       307       317       327       337       347       357
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  extra numbering lines below/above indicate numbering irregularities and modified residue names etc., number ends below/above '|'

 Classification and Annotation

(-) SCOP Domains  (1, 4)

Asymmetric Unit
(-)
Class: Alpha and beta proteins (a/b) (23833)

(-) CATH Domains  (2, 8)

Asymmetric Unit
(-)
Class: Alpha Beta (26913)

(-) Pfam Domains  (0, 0)

(no "Pfam Domain" information available for 3FTB)

(-) Gene Ontology  (5, 5)

Asymmetric Unit(hide GO term definitions)
Chain A,B,D,E   (Q97JB7_CLOAB | Q97JB7)
molecular function
    GO:0003824    catalytic activity    Catalysis of a biochemical reaction at physiological temperatures. In biologically catalyzed reactions, the reactants are known as substrates, and the catalysts are naturally occurring macromolecular substances known as enzymes. Enzymes possess specific binding sites for substrates, and are usually composed wholly or largely of protein, but RNA that has catalytic activity (ribozyme) is often also regarded as enzymatic.
    GO:0030170    pyridoxal phosphate binding    Interacting selectively and non-covalently with pyridoxal 5' phosphate, 3-hydroxy-5-(hydroxymethyl)-2-methyl4-pyridine carboxaldehyde 5' phosphate, the biologically active form of vitamin B6.
    GO:0008483    transaminase activity    Catalysis of the transfer of an amino group to an acceptor, usually a 2-oxo acid.
    GO:0016740    transferase activity    Catalysis of the transfer of a group, e.g. a methyl group, glycosyl group, acyl group, phosphorus-containing, or other groups, from one compound (generally regarded as the donor) to another compound (generally regarded as the acceptor). Transferase is the systematic name for any enzyme of EC class 2.
biological process
    GO:0009058    biosynthetic process    The chemical reactions and pathways resulting in the formation of substances; typically the energy-requiring part of metabolism in which simpler substances are transformed into more complex ones.

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